Nextflow workflow report

[special_lavoisier]

Workflow execution completed unsuccessfully!

The exit status of the task that caused the workflow execution to fail was: null.

The full error message was:

Error executing process > 'NFCORE_SEQINSPECTOR:SEQINSPECTOR:FASTQSCREEN_FASTQSCREEN (SAMPLE_PAIRED_END_2_2)'

Caused by:
  Process requirement exceeds available memory -- req: 36 GB; avail: 16 GB


Command executed:

  echo 'DATABASE Ecoli ./ref1/genome bowtie2
  DATABASE PhiX ./ref2/genome bowtie2
  DATABASE Scerevisiae ./ref3/genome bowtie2' > fastq_screen.conf
  
      fastq_screen \
          --conf fastq_screen.conf \
          --threads 6 \
          Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001.fastq.gz Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001.fastq.gz \
          
  
      mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001_screen.txt SAMPLE_PAIRED_END_2_2_1_screen.txt && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001_screen.txt SAMPLE_PAIRED_END_2_2_2_screen.txt && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001_screen.html SAMPLE_PAIRED_END_2_2_1_screen.html && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001_screen.html SAMPLE_PAIRED_END_2_2_2_screen.html && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R1_001_screen.png SAMPLE_PAIRED_END_2_2_1_screen.png && mv Bpacificus-ATCC10987-rep2-sWGS-MiSeqi100-241111_S2_L001_R2_001_screen.png SAMPLE_PAIRED_END_2_2_2_screen.png
  
      fastq_screen_version=$(fastq_screen --version 2>&1 | sed 's/^.*FastQ Screen v//; s/ .*$//')
      echo "\"NFCORE_SEQINSPECTOR:SEQINSPECTOR:FASTQSCREEN_FASTQSCREEN\":" > versions.yml
      echo "    fastqscreen: $fastq_screen_version" >> versions.yml

Command exit status:
  -

Command output:
  (empty)

Work dir:
  /Users/agrimabhatt/seqinspector/work/14/4e6d5ede6fc8b5cae25918130a5b37

Container:
  community.wave.seqera.io/library/fastq-screen_perl-gdgraph:5c1786a5d5bc1309

Tip: you can replicate the issue by changing to the process work dir and entering the command `bash .command.run`
Run times
14-Oct-2025 13:02:15 - 14-Oct-2025 13:02:45 (duration: 30.8s)
  2 succeeded  
  0 cached  
  0 ignored  
  1 failed (0 retries)  
Nextflow command
nextflow run main.nf -profile test,docker --input /Users/agrimabhatt/pipeline/testdata/testdata/Miseq_PairedEnd/samplesheet.csv --outdir result -with-report
CPU-Hours
(a few seconds)
Launch directory
/Users/agrimabhatt/seqinspector
Work directory
/Users/agrimabhatt/seqinspector/work
Project directory
/Users/agrimabhatt/seqinspector
Script name
main.nf
Script ID
51ae67c7a1786a7937e7c520871990bd
Workflow session
9c9c582b-110a-4f3b-96e8-c8f423918c58
Workflow profile
test,docker
Nextflow version
version 25.04.7, build 5955 (08-09-2025 13:29 UTC)

Resource Usage

These plots give an overview of the distribution of resource usage for each process.

CPU

Memory

Job Duration

I/O

Tasks

This table shows information about each task in the workflow. Use the search box on the right to filter rows for specific values. Clicking headers will sort the table by that value and scrolling side to side will reveal more columns.

(tasks table omitted because the dataset is too big)